splice junction track

[Ryan Golhar]

Hi - I'm viewing some RNA-Seq data in IGV and recall being able to display a splice-junction track, but can't figure out how to get it enabled.

The docs, http://www.broadinstitute.org/software/igv/splice_junctions, states: 

Note: The track can also be computed dynamically from an Alignment track by enabling the "Show splice junctions track" option in the alignment preferences.

I have this aligned, but still don't know how to get it to display.  Do I still need to load a BED file or am I missing an option somewhere?

[Jim Robinson]

Ryan,  select "View > Preferences" and click the Alignments tab.  The option to enable this is about 1/2 way down.  You need to reload tracks after enabling.

Jim